#!/bin/bash

files='RGc19_S11 RGc18_S10 RGc16_S8 RGc20_S12 RGc14_S6 RGc15_S7 RGc17_S9'
for f in $files; do
    echo $f;
    alevin-fry quant -r cr-like -m ../ref_files/pyroe_ext_ref/splici_fl85_t2g_3col.tsv -i ../outputs/alevin_fry_gpl/${f} -o ../outputs/alevin_fry_quant/${f} -t 8;
    echo '';
done
